organic compounds
Methyl 3-hydroxy-4-(3-methylbut-2-enyloxy)benzoate
aSchool of Pharmacy, Guangdong Medical College, Dongguan, Guangdong 523808, People's Republic of China, bCollege of Chemistry and Chemical Engineering, Luoyang Normal University, Luoyang, Henan 471022, People's Republic of China, and cSchool of Medicine and Pharmacy, Ocean University of China, Qingdao, Shandong 266003, People's Republic of China
*Correspondence e-mail: changyun@ouc.edu.cn
The title compound, C13H16O4, was isolated from culture extracts of the endophytic fungus Cephalosporium sp. The ester and ether substituents are twisted only slightly out of the benzene ring plane, making dihedral angles of 2.16 (2) and 3.63 (5)°, respectively. The non-H atoms of all three substituents are almost coplanar with the benzene ring, with an r.m.s. deviation of 0.0284 Å from the mean plane through all non-H atoms in the structure. A weak intramolecular O—H⋯O hydrogen bond contributes to this conformation. In the molecules are linked into a one-dimensional chain by intermolecular O—H⋯O hydrogen bonds. Weak non-classical C—H⋯π contacts are also observed in the structure.
Related literature
For structures with C—H⋯O and C—H⋯π contacts, see: Nangia (2002); Umezawa et al. (1999). For new bioactive from the endophytic strain B60, see: Shao et al. (2007, 2008). For an investigation of the endophytic fungus, see: Shao et al. (2008). For a related structure, see: Huang et al. (2005).
Experimental
Crystal data
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Refinement
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Data collection: APEX2 (Bruker, 2004); cell SAINT (Bruker, 2004); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: SHELXTL (Sheldrick, 2008) and DIAMOND (Brandenburg, 2006); software used to prepare material for publication: SHELXTL and PLATON (Spek, 2009).
Supporting information
10.1107/S160053680900806X/sj2576sup1.cif
contains datablocks global, I. DOI:Structure factors: contains datablock I. DOI: 10.1107/S160053680900806X/sj2576Isup2.hkl
An unidentified fungus (No. B60) was deposited in the School of Chemistry and Chemical Engineering, Sun Yat-sen University, Guangzhou, People's Republic of China. Strain No. B60 was cultivated without shaking in GYT medium (10 g of glucose, 2 g of peptone /L, 1 g of yeast extract /L, 2.5 g of NaCl, 1L of water) at 298 K for 4 weeks. The cultures (120 L) were filtered through cheesecloth. The filtrate was concentrated to 3 L below 323 K, then extracted five times by shaking with an equal volume of ethyl acetate. The extract was evaporated under reduced pressure below 323 K. The combined organic extracts were subjected to silica-gel
eluting with petroleum ether/ethyl acetate (9:1, v:v), to yield the title compound, which was confirmed by spectral data including NMR and EI—MS. Crystals of the title compound were obtained by evaporation of an ethyl acetate solution.All H atoms were positioned geometrically and treated as riding, with C—H bonding lengths constrained to 0.93 (aromatic CH), 0.96 Å (methyl CH3), 0.97 Å (methylene CH2), and O—H = 0.84 Å, and with Uĩso~(H) = 1.2Ueq(CH) or Uĩso~(H) = 1.5Ueq(CH3, methylene C or OH).
Data collection: APEX2 (Bruker, 2004); cell
SAINT (Bruker, 2004); data reduction: SAINT (Bruker, 2004); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: SHELXTL (Sheldrick, 2008) and DIAMOND (Brandenburg, 2006); software used to prepare material for publication: SHELXTL (Sheldrick, 2008) and PLATON (Spek, 2009).Fig. 1. The structure of (I) with displacement ellipsoids for the non-hydrogen atoms drawn at the 30% probability level. | |
Fig. 2. Crystal packing of (I) viewed down the b axis with hydrogen bonds drawn as dashed lines. |
C13H16O4 | Z = 2 |
Mr = 236.26 | F(000) = 252 |
Triclinic, P1 | Dx = 1.255 Mg m−3 |
Hall symbol: -P 1 | Mo Kα radiation, λ = 0.71073 Å |
a = 7.8401 (16) Å | Cell parameters from 4817 reflections |
b = 8.3899 (17) Å | θ = 1.9–26.0° |
c = 11.099 (2) Å | µ = 0.09 mm−1 |
α = 100.655 (3)° | T = 291 K |
β = 98.771 (3)° | Block, colorless |
γ = 115.456 (3)° | 0.40 × 0.38 × 0.35 mm |
V = 625.3 (2) Å3 |
Bruker APEXII CCD diffractometer | 2420 independent reflections |
Radiation source: fine-focus sealed tube | 2058 reflections with I > 2σ(I) |
Graphite monochromator | Rint = 0.014 |
ϕ and ω scans | θmax = 26.0°, θmin = 1.9° |
Absorption correction: multi-scan (SADABS; Sheldrick, 1996) | h = −9→9 |
Tmin = 0.964, Tmax = 0.968 | k = −10→10 |
4817 measured reflections | l = −13→13 |
Refinement on F2 | Primary atom site location: structure-invariant direct methods |
Least-squares matrix: full | Secondary atom site location: difference Fourier map |
R[F2 > 2σ(F2)] = 0.051 | Hydrogen site location: inferred from neighbouring sites |
wR(F2) = 0.161 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.05 | w = 1/[σ2(Fo2) + (0.1024P)2 + 0.0667P] where P = (Fo2 + 2Fc2)/3 |
2420 reflections | (Δ/σ)max < 0.001 |
158 parameters | Δρmax = 0.23 e Å−3 |
0 restraints | Δρmin = −0.25 e Å−3 |
C13H16O4 | γ = 115.456 (3)° |
Mr = 236.26 | V = 625.3 (2) Å3 |
Triclinic, P1 | Z = 2 |
a = 7.8401 (16) Å | Mo Kα radiation |
b = 8.3899 (17) Å | µ = 0.09 mm−1 |
c = 11.099 (2) Å | T = 291 K |
α = 100.655 (3)° | 0.40 × 0.38 × 0.35 mm |
β = 98.771 (3)° |
Bruker APEXII CCD diffractometer | 2420 independent reflections |
Absorption correction: multi-scan (SADABS; Sheldrick, 1996) | 2058 reflections with I > 2σ(I) |
Tmin = 0.964, Tmax = 0.968 | Rint = 0.014 |
4817 measured reflections |
R[F2 > 2σ(F2)] = 0.051 | 0 restraints |
wR(F2) = 0.161 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.05 | Δρmax = 0.23 e Å−3 |
2420 reflections | Δρmin = −0.25 e Å−3 |
158 parameters |
Geometry. All e.s.d.'s (except the e.s.d. in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell e.s.d.'s are taken into account individually in the estimation of e.s.d.'s in distances, angles and torsion angles; correlations between e.s.d.'s in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell e.s.d.'s is used for estimating e.s.d.'s involving l.s. planes. |
Refinement. Refinement of F2 against ALL reflections. The weighted R-factor wR and goodness of fit S are based on F2, conventional R-factors R are based on F, with F set to zero for negative F2. The threshold expression of F2 > σ(F2) is used only for calculating R-factors(gt) etc. and is not relevant to the choice of reflections for refinement. R-factors based on F2 are statistically about twice as large as those based on F, and R- factors based on ALL data will be even larger. |
x | y | z | Uiso*/Ueq | ||
C1 | −0.4408 (3) | 0.2951 (3) | 0.50642 (16) | 0.0716 (5) | |
H1A | −0.3697 | 0.3458 | 0.5944 | 0.107* | |
H1B | −0.4681 | 0.1692 | 0.4784 | 0.107* | |
H1C | −0.5616 | 0.3009 | 0.4960 | 0.107* | |
C2 | −0.4029 (2) | 0.34671 (19) | 0.30738 (14) | 0.0490 (4) | |
C3 | −0.2748 (2) | 0.46837 (17) | 0.24198 (13) | 0.0453 (3) | |
C4 | −0.0924 (2) | 0.61796 (19) | 0.30835 (13) | 0.0481 (4) | |
H4A | −0.0474 | 0.6410 | 0.3955 | 0.058* | |
C5 | 0.02077 (19) | 0.73115 (19) | 0.24510 (13) | 0.0457 (3) | |
C6 | −0.04479 (19) | 0.69490 (18) | 0.11391 (13) | 0.0452 (3) | |
C7 | −0.2253 (2) | 0.5465 (2) | 0.04830 (14) | 0.0558 (4) | |
H7A | −0.2702 | 0.5224 | −0.0389 | 0.067* | |
C8 | −0.3388 (2) | 0.4343 (2) | 0.11268 (14) | 0.0544 (4) | |
H8A | −0.4597 | 0.3346 | 0.0682 | 0.065* | |
C9 | 0.0269 (2) | 0.7902 (2) | −0.07071 (14) | 0.0557 (4) | |
H9A | −0.0895 | 0.8036 | −0.0942 | 0.067* | |
H9B | 0.0003 | 0.6684 | −0.1169 | 0.067* | |
C10 | 0.1952 (2) | 0.9336 (2) | −0.10072 (15) | 0.0578 (4) | |
H10A | 0.3061 | 1.0114 | −0.0342 | 0.069* | |
C11 | 0.1993 (2) | 0.9589 (2) | −0.21421 (14) | 0.0546 (4) | |
C12 | 0.0315 (3) | 0.8410 (3) | −0.32730 (17) | 0.0836 (6) | |
H12A | −0.0725 | 0.7516 | −0.3026 | 0.125* | |
H12B | 0.0724 | 0.7793 | −0.3892 | 0.125* | |
H12C | −0.0138 | 0.9160 | −0.3632 | 0.125* | |
C13 | 0.3751 (3) | 1.1067 (3) | −0.2368 (2) | 0.0752 (5) | |
H13A | 0.4748 | 1.1741 | −0.1582 | 0.113* | |
H13B | 0.3387 | 1.1889 | −0.2699 | 0.113* | |
H13C | 0.4242 | 1.0518 | −0.2968 | 0.113* | |
O1 | −0.32509 (16) | 0.39913 (15) | 0.43211 (10) | 0.0640 (4) | |
O2 | −0.56125 (16) | 0.21602 (16) | 0.25485 (12) | 0.0702 (4) | |
O3 | 0.19557 (16) | 0.87793 (16) | 0.31218 (11) | 0.0663 (4) | |
H3A | 0.231 (4) | 0.943 (4) | 0.263 (2) | 0.102 (8)* | |
O4 | 0.08089 (14) | 0.81567 (13) | 0.06303 (9) | 0.0537 (3) |
U11 | U22 | U33 | U12 | U13 | U23 | |
C1 | 0.0731 (11) | 0.0727 (11) | 0.0615 (10) | 0.0165 (9) | 0.0292 (9) | 0.0378 (9) |
C2 | 0.0446 (7) | 0.0438 (7) | 0.0559 (8) | 0.0141 (6) | 0.0170 (6) | 0.0222 (6) |
C3 | 0.0414 (7) | 0.0383 (7) | 0.0526 (8) | 0.0122 (6) | 0.0151 (6) | 0.0191 (6) |
C4 | 0.0452 (7) | 0.0459 (7) | 0.0446 (7) | 0.0117 (6) | 0.0118 (6) | 0.0186 (6) |
C5 | 0.0377 (7) | 0.0407 (7) | 0.0492 (7) | 0.0089 (5) | 0.0108 (5) | 0.0166 (6) |
C6 | 0.0434 (7) | 0.0397 (7) | 0.0494 (8) | 0.0127 (6) | 0.0169 (6) | 0.0192 (6) |
C7 | 0.0535 (8) | 0.0494 (8) | 0.0451 (7) | 0.0067 (7) | 0.0093 (6) | 0.0177 (6) |
C8 | 0.0456 (7) | 0.0441 (7) | 0.0523 (8) | 0.0029 (6) | 0.0078 (6) | 0.0166 (6) |
C9 | 0.0579 (9) | 0.0501 (8) | 0.0481 (8) | 0.0119 (7) | 0.0171 (6) | 0.0208 (6) |
C10 | 0.0588 (9) | 0.0500 (8) | 0.0534 (8) | 0.0114 (7) | 0.0210 (7) | 0.0205 (7) |
C11 | 0.0688 (10) | 0.0527 (8) | 0.0556 (8) | 0.0316 (8) | 0.0311 (7) | 0.0252 (7) |
C12 | 0.0918 (14) | 0.0981 (15) | 0.0565 (10) | 0.0370 (12) | 0.0193 (10) | 0.0314 (10) |
C13 | 0.0933 (14) | 0.0714 (11) | 0.0806 (12) | 0.0382 (11) | 0.0533 (11) | 0.0417 (10) |
O1 | 0.0574 (6) | 0.0626 (7) | 0.0561 (6) | 0.0075 (5) | 0.0189 (5) | 0.0305 (5) |
O2 | 0.0530 (7) | 0.0590 (7) | 0.0689 (7) | −0.0030 (5) | 0.0148 (5) | 0.0275 (6) |
O3 | 0.0486 (6) | 0.0604 (7) | 0.0555 (7) | −0.0055 (5) | 0.0056 (5) | 0.0255 (5) |
O4 | 0.0496 (6) | 0.0489 (6) | 0.0470 (6) | 0.0055 (5) | 0.0153 (4) | 0.0212 (5) |
C1—O1 | 1.4418 (17) | C8—H8A | 0.9300 |
C1—H1A | 0.9600 | C9—O4 | 1.4289 (18) |
C1—H1B | 0.9600 | C9—C10 | 1.489 (2) |
C1—H1C | 0.9600 | C9—H9A | 0.9700 |
C2—O2 | 1.2066 (18) | C9—H9B | 0.9700 |
C2—O1 | 1.3300 (18) | C10—C11 | 1.319 (2) |
C2—C3 | 1.4808 (18) | C10—H10A | 0.9300 |
C3—C8 | 1.378 (2) | C11—C12 | 1.484 (3) |
C3—C4 | 1.399 (2) | C11—C13 | 1.500 (2) |
C4—C5 | 1.3763 (18) | C12—H12A | 0.9600 |
C4—H4A | 0.9300 | C12—H12B | 0.9600 |
C5—O3 | 1.3594 (17) | C12—H12C | 0.9600 |
C5—C6 | 1.397 (2) | C13—H13A | 0.9600 |
C6—O4 | 1.3563 (16) | C13—H13B | 0.9600 |
C6—C7 | 1.386 (2) | C13—H13C | 0.9600 |
C7—C8 | 1.382 (2) | O3—H3A | 0.84 (3) |
C7—H7A | 0.9300 | ||
O1—C1—H1A | 109.5 | O4—C9—C10 | 106.75 (12) |
O1—C1—H1B | 109.5 | O4—C9—H9A | 110.4 |
H1A—C1—H1B | 109.5 | C10—C9—H9A | 110.4 |
O1—C1—H1C | 109.5 | O4—C9—H9B | 110.4 |
H1A—C1—H1C | 109.5 | C10—C9—H9B | 110.4 |
H1B—C1—H1C | 109.5 | H9A—C9—H9B | 108.6 |
O2—C2—O1 | 123.26 (13) | C11—C10—C9 | 125.11 (15) |
O2—C2—C3 | 124.42 (14) | C11—C10—H10A | 117.4 |
O1—C2—C3 | 112.31 (12) | C9—C10—H10A | 117.4 |
C8—C3—C4 | 119.39 (13) | C10—C11—C12 | 121.92 (15) |
C8—C3—C2 | 118.91 (13) | C10—C11—C13 | 121.91 (16) |
C4—C3—C2 | 121.69 (13) | C12—C11—C13 | 116.16 (15) |
C5—C4—C3 | 120.19 (13) | C11—C12—H12A | 109.5 |
C5—C4—H4A | 119.9 | C11—C12—H12B | 109.5 |
C3—C4—H4A | 119.9 | H12A—C12—H12B | 109.5 |
O3—C5—C4 | 119.06 (13) | C11—C12—H12C | 109.5 |
O3—C5—C6 | 120.93 (12) | H12A—C12—H12C | 109.5 |
C4—C5—C6 | 120.01 (12) | H12B—C12—H12C | 109.5 |
O4—C6—C7 | 126.11 (13) | C11—C13—H13A | 109.5 |
O4—C6—C5 | 114.18 (12) | C11—C13—H13B | 109.5 |
C7—C6—C5 | 119.71 (13) | H13A—C13—H13B | 109.5 |
C8—C7—C6 | 119.92 (14) | C11—C13—H13C | 109.5 |
C8—C7—H7A | 120.0 | H13A—C13—H13C | 109.5 |
C6—C7—H7A | 120.0 | H13B—C13—H13C | 109.5 |
C3—C8—C7 | 120.78 (13) | C2—O1—C1 | 117.18 (12) |
C3—C8—H8A | 119.6 | C5—O3—H3A | 105.7 (18) |
C7—C8—H8A | 119.6 | C6—O4—C9 | 118.40 (11) |
O2—C2—C3—C8 | 0.9 (2) | C5—C6—C7—C8 | −0.6 (2) |
O1—C2—C3—C8 | −178.13 (12) | C4—C3—C8—C7 | −0.3 (2) |
O2—C2—C3—C4 | −179.95 (14) | C2—C3—C8—C7 | 178.79 (13) |
O1—C2—C3—C4 | 1.0 (2) | C6—C7—C8—C3 | 0.2 (3) |
C8—C3—C4—C5 | 0.8 (2) | O4—C9—C10—C11 | −177.76 (15) |
C2—C3—C4—C5 | −178.28 (12) | C9—C10—C11—C12 | −0.9 (3) |
C3—C4—C5—O3 | 178.57 (13) | C9—C10—C11—C13 | −179.89 (15) |
C3—C4—C5—C6 | −1.2 (2) | O2—C2—O1—C1 | −1.6 (2) |
O3—C5—C6—O4 | 0.8 (2) | C3—C2—O1—C1 | 177.47 (13) |
C4—C5—C6—O4 | −179.48 (12) | C7—C6—O4—C9 | −0.6 (2) |
O3—C5—C6—C7 | −178.70 (14) | C5—C6—O4—C9 | 179.99 (12) |
C4—C5—C6—C7 | 1.0 (2) | C10—C9—O4—C6 | −176.59 (12) |
O4—C6—C7—C8 | −179.96 (13) |
D—H···A | D—H | H···A | D···A | D—H···A |
O3—H3A···O4 | 0.84 (3) | 2.16 (2) | 2.6519 (15) | 117 (2) |
O3—H3A···O2i | 0.84 (3) | 2.20 (3) | 2.9111 (16) | 143 (2) |
C9—H9B···Cg1ii | 0.97 | 2.90 | 3.7483 (2) | 146 |
C13—H13B···Cg1iii | 0.96 | 2.96 | 3.688 (3) | 134 |
Symmetry codes: (i) x+1, y+1, z; (ii) −x, −y+1, −z; (iii) −x, −y+2, −z. |
Experimental details
Crystal data | |
Chemical formula | C13H16O4 |
Mr | 236.26 |
Crystal system, space group | Triclinic, P1 |
Temperature (K) | 291 |
a, b, c (Å) | 7.8401 (16), 8.3899 (17), 11.099 (2) |
α, β, γ (°) | 100.655 (3), 98.771 (3), 115.456 (3) |
V (Å3) | 625.3 (2) |
Z | 2 |
Radiation type | Mo Kα |
µ (mm−1) | 0.09 |
Crystal size (mm) | 0.40 × 0.38 × 0.35 |
Data collection | |
Diffractometer | Bruker APEXII CCD diffractometer |
Absorption correction | Multi-scan (SADABS; Sheldrick, 1996) |
Tmin, Tmax | 0.964, 0.968 |
No. of measured, independent and observed [I > 2σ(I)] reflections | 4817, 2420, 2058 |
Rint | 0.014 |
(sin θ/λ)max (Å−1) | 0.617 |
Refinement | |
R[F2 > 2σ(F2)], wR(F2), S | 0.051, 0.161, 1.05 |
No. of reflections | 2420 |
No. of parameters | 158 |
H-atom treatment | H atoms treated by a mixture of independent and constrained refinement |
Δρmax, Δρmin (e Å−3) | 0.23, −0.25 |
Computer programs: APEX2 (Bruker, 2004), SAINT (Bruker, 2004), SHELXS97 (Sheldrick, 2008), SHELXL97 (Sheldrick, 2008), SHELXTL (Sheldrick, 2008) and DIAMOND (Brandenburg, 2006), SHELXTL (Sheldrick, 2008) and PLATON (Spek, 2009).
D—H···A | D—H | H···A | D···A | D—H···A |
O3—H3A···O4 | 0.84 (3) | 2.16 (2) | 2.6519 (15) | 117 (2) |
O3—H3A···O2i | 0.84 (3) | 2.20 (3) | 2.9111 (16) | 143 (2) |
C9—H9B···Cg1ii | 0.97 | 2.90 | 3.7483 (2) | 146 |
C13—H13B···Cg1iii | 0.96 | 2.96 | 3.688 (3) | 134 |
Symmetry codes: (i) x+1, y+1, z; (ii) −x, −y+1, −z; (iii) −x, −y+2, −z. |
Acknowledgements
We wish to acknowledge financial support from the National Natural Science Foundation of China (No. 40776073), the Basic Research Program of Science and Technology, Ministry of Science and Technology of China (No. 2007FY210500), the Youthful Fund of Guangdong Medical College (No. XQ0511), and the doctoral startup fund of Ocean University of China (No. 1404–82421036).
References
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This is an open-access article distributed under the terms of the Creative Commons Attribution (CC-BY) Licence, which permits unrestricted use, distribution, and reproduction in any medium, provided the original authors and source are cited.
Marine fungi have proven to be a rich source of novel structural compounds with interesting biological activities and a high level of biodiversity. As a continuation of our previous investigations aimed at finding new bioactive compounds, we found that an unidentified endophytic strain B60 isolated from the mangrove tree can produce new metabolites (Shao et al. 2007; Shao et al. 2008).
Although the structure of the title compound was previously elucidated on the basis of spectroscopic analysis (Shao et al. 2008), we have now determined its solid state structure, Fig. 1, which is reported here. All bond lengths and angles in the molecule are in good agreement with those reported in a related structure by Huang et al. (2005). In the title compound, the most striking feature is the interesting arrangement of the molecules, which linked to form a one-dimensional chain by intermolecular O—H···O hydrogen bonds, Table 1, Fig. 2. Further, weak non-classical C—H···π contacts, similar to those previously reported (Nangia, 2002; Umezawa et al. 1999) are also observed, in which C9—H9B and C13—H13B act as donors with the benzene ring as the acceptor.